Publications

Marderstein AR, Davenport ER, Kulm S, Van Hout CV, Elemento O, Clark AG.  2021.  Leveraging phenotypic variability to identify genetic interactions in human phenotypes.. Am J Hum Genet. 108(1):49-67.

Legesse-Miller A, Elemento O, Pfau SJ, Forman JJ, Tavazoie S, Coller HA.  2009.  let-7 Overexpression leads to an increased fraction of cells in G2/M, direct down-regulation of Cdc34, and stabilization of Wee1 kinase in primary fibroblasts.. J Biol Chem. 284(11):6605-9.

Lieber DS, Elemento O, Tavazoie S.  2010.  Large-scale discovery and characterization of protein regulatory motifs in eukaryotes.. PLoS One. 5(12):e14444.

Anibal J, Nama GKrishna Ch, Ganesh S, Nafii Y, Cruz SSalvi, Daoud V, Zanin M, Le T, Khorrami P, Wood BJ et al..  2026.  Large Language Models for Optimizing Patient Recruitment Decisions in Voice Data Generation Projects.. Laryngoscope Investig Otolaryngol. 11(4):e70519.

Vivelo C, Reilly KM, Widemann BC, Wedekind MFrances, Painter C, O'Neill AF, Mueller S, Elemento O, Gross AM, Sandler AB.  2024.  The Landscape of US and Global Rare Tumor Research Programs: A Systematic Review.. Oncologist. 29(2):106-116.

Bakht MK, Yamada Y, Ku S-Y, Venkadakrishnan VBalaji, Korsen JA, Kalidindi TM, Mizuno K, Ahn SHye, Seo J-H, Garcia MMica et al..  2023.  Landscape of prostate-specific membrane antigen heterogeneity and regulation in AR-positive and AR-negative metastatic prostate cancer.. Nat Cancer. 4(5):699-715.

Mueller FB, Yang H, Lubetzky M, Verma A, Lee JR, Dadhania DM, Xiang JZ, Salvatore SP, Seshan SV, Sharma VK et al..  2019.  Landscape of innate immune system transcriptome and acute T cell-mediated rejection of human kidney allografts.. JCI Insight. 4(13)

Linares JF, Cid-Diaz T, Duran A, Osrodek M, Martinez-Ordoñez A, Reina-Campos M, Kuo H-H, Elemento O, M Martin L, Cordes T et al..  2022.  The lactate-NAD axis activates cancer-associated fibroblasts by downregulating p62.. Cell Rep. 39(6):110792.

He Y, Kim I-K, Bian J, Polyzos A, Di Giammartino DCampigli, Zhang Y-W, Luo J, Hernandez MO, Kedei N, Cam M et al..  2022.  A Knock-In Mouse Model of Thymoma With the GTF2I L424H Mutation.. J Thorac Oncol. 17(12):1375-1386.

Elemento O.  2016.  KLF4: A new player in plasma cell development.. Cell Cycle. 15(20):2691-2.

Rowdo FPMadorsky, Martini R, Ackermann SE, Tang CP, Tranquille M, Irizarry A, Us I, Alawa O, Moyer JE, Sigouros M et al..  2025.  Kinome-Focused CRISPR-Cas9 Screens in African Ancestry Patient-Derived Breast Cancer Organoids Identify Essential Kinases and Synergy of EGFR and FGFR1 Inhibition.. Cancer Res. 85(3):551-566.

Barton BM, Son F, Verma A, Bal SKumar, Tang Q, Wang R, Umphred-Wilson K, Khan R, Trichka J, Dong H et al..  2025.  IRE1α-XBP1 safeguards hematopoietic stem and progenitor cells by restricting pro-leukemogenic gene programs.. Nat Immunol. 26(2):200-214.

Yaron-Barir TM, Joughin BA, Huntsman EM, Kerelsky A, Cizin DM, Cohen BM, Regev A, Song J, Vasan N, Lin T-Y et al..  2024.  The intrinsic substrate specificity of the human tyrosine kinome.. Nature. 629(8014):1174-1181.

Abrahimi P, Khan JF, Duren-Lubanski A, Cai W, Marouf Y, Chen N, Hirschhorn D, Mammone R, Miranda IC, Tallman JE et al..  2026.  Intravesical mesothelin-based CAR T cells targeting MUC16 effectively control bladder cancer in preclinical models.. J Exp Med. 223(7)

Nguyen DD, Hooper WF, Liu W, Chu TR, Geiger H, Shelton JM, Shah M, Goldstein ZR, Winterkorn L, Helland A et al..  2024.  The interplay of mutagenesis and ecDNA shapes urothelial cancer evolution.. Nature. 635(8037):219-228.

Hissong E, Bhinder B, Kim J, Ohara K, Ravichandran H, Assaad MAl, Elsoukkary S, Shusterman M, Khan U, Eng KWha et al..  2024.  Integrative Transcriptomic and Single-Cell Protein Characterization of Colorectal Carcinoma Delineates Distinct Tumor Immune Microenvironments Associated with Overall Survival.. Res Sq.

Hissong E, Bhinder B, Kim J, Ohara K, Ravichandran H, Assaad MAl, Elsoukkary S, Shusterman M, Khan U, Eng KWha et al..  2025.  Integrative transcriptomic and single-cell protein characterization of colorectal carcinoma delineates distinct tumor immune microenvironments associated with overall survival.. Pathol Res Pract. 273:156150.

Liu D, Shoag JE, Poliak D, Goueli RS, Ravikumar V, Redmond D, Vosoughi A, Fontugne J, Pan H, Lee D et al..  2020.  Integrative multiplatform molecular profiling of benign prostatic hyperplasia identifies distinct subtypes.. Nat Commun. 11(1):1987.

Uppal M, Bhinder B, Marderstein AR, Batlevi CLee, Falchi L, Hamlin P, Horwitz S, Kumar A, Noy A, Zelenetz AD et al..  2026.  Integrative Molecular Analysis Reveals Determinants of Clinical Outcomes in TP53-Mutated Diffuse Large B-Cell Lymphoma.. J Clin Oncol. :JCO2501928.

Sailer V, Eng KWa, Zhang T, Bareja R, Pisapia DJ, Sigaras A, Bhinder B, Romanel A, Wilkes D, Sticca E et al..  2019.  Integrative Molecular Analysis of Patients With Advanced and Metastatic Cancer.. JCO Precis Oncol. 3

Geng H, Brennan S, Milne TA, Chen W-Y, Li Y, Hurtz C, Kweon S-M, Zickl L, Shojaee S, Neuberg D et al..  2012.  Integrative epigenomic analysis identifies biomarkers and therapeutic targets in adult B-acute lymphoblastic leukemia.. Cancer Discov. 2(11):1004-23.

Wolujewicz P, Aguiar-Pulido V, Thareja G, Suhre K, Elemento O, Finnell RH, M Ross E.  2024.  Integrative computational analyses implicate regulatory genomic elements contributing to spina bifida.. Genet Med Open. 2:101894.

Robinson D, Van Allen EM, Wu Y-M, Schultz N, Lonigro RJ, Mosquera J-M, Montgomery B, Taplin M-E, Pritchard CC, Attard G et al..  2015.  Integrative Clinical Genomics of Advanced Prostate Cancer.. Cell. 162(2):454.

Beg S, Bareja R, Ohara K, Eng KWha, Wilkes DC, Pisapia DJ, Zoughbi WAl, Kudman S, Zhang W, Rao R et al..  2021.  Integration of whole-exome and anchored PCR-based next generation sequencing significantly increases detection of actionable alterations in precision oncology.. Transl Oncol. 14(1):100944.

Carty M, Zamparo L, Sahin M, González A, Pelossof R, Elemento O, Leslie CS.  2017.  An integrated model for detecting significant chromatin interactions from high-resolution Hi-C data.. Nat Commun. 8:15454.